scPDB - 2e1z entry

Protein Data Bank Entry:

PDB ID : 2e1z

Resolution :1.980 Å

Experimental Method : X-ray

Deposition Date : 2006-11-04

Activity from ChEMBL: What is pChEMBL ?

	Min	Mean	Median	Standard Deviation	Max	Count
pChEMBL:

List of CHEMBLId :

Binding Site :

Uniprot Annotation

Name:	Propionate kinase
ID:	TDCD_SALTY
AC:	O06961
Organism:	Salmonella typhimurium
Reign:	Bacteria
TaxID:	99287
EC Number:	/

Chains:

Chain Name:	Percentage of Residues within binding site
A	100 %

Ligand binding site composition:

B-Factor:	28.703
Number of residues:	54
Including
Standard Amino Acids:	49
Non Standard Amino Acids:	0
Water Molecules:	5
Cofactors:
Metals:

Cavity properties

Ligandability	Volume (Å3)
0.355	634.500

% Hydrophobic	% Polar
37.77	62.23
According to VolSite

Ligand :

HET Code:	B4P
Formula:	C20H24N10O19P4
Molecular weight:	832.355 g/mol
DrugBank ID:	-
Buried Surface Area:	49.89 %
Polar Surface area:	484.53 Å2

Number of
H-Bond Acceptors:	27
H-Bond Donors:	6
Rings:	6
Aromatic rings:	4
Anionic atoms:	4
Cationic atoms:	0
Rule of Five Violation:	3
Rotatable Bonds:	14

Mass center Coordinates

X	Y	Z
14.5855	40.7653	52.4313

Binding mode :

What is Poseview ?

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Image generated by PoseView

Protein

Binding Site

Ligand

Interaction pattern

hydrophobic (CA)

aromatic (CZ)

hydrogen bond acceptor (O)

hydrogen bond acceptor/donor (OG)

hydrogen bond donor (N)

positively ionized (NZ)

negatively ionized (OD1)

metal (ZN)

Legend:

Represent the protein/ligand binding mode, centered on the ligand
Dashed lines represents hydrogen bonds and metal interactions
Green residue labels for amino acids with hydrophobic contacts (green lines) to the ligand

Image generated using PoseView by BioSolveIT

Ligand	Protein		Interaction
Atom	Atom	Residue	Distance (Å)	Angle (°)	Type
O3F	ND2	ASN- 11	3.01	159.63	H-Bond (Protein Donor)	false
DuAr	DuAr	HIS- 118	3.73	0	Aromatic Face/Face	false
O2D	NE2	HIS- 175	2.9	163.18	H-Bond (Protein Donor)	false
O2G	NE2	HIS- 203	2.8	163.67	H-Bond (Protein Donor)	false
O3A	N	ASN- 206	3.37	167.32	H-Bond (Protein Donor)	false
O2B	ND2	ASN- 206	3.16	154.29	H-Bond (Protein Donor)	false
O1G	N	GLY- 207	2.78	167.01	H-Bond (Protein Donor)	false
O2E	OD2	ASP- 278	3.09	120.11	H-Bond (Ligand Donor)	false
O3E	N	LEU- 279	3.37	173.75	H-Bond (Protein Donor)	false
O2E	N	LEU- 279	3.25	123.38	H-Bond (Protein Donor)	false
O2E	NE	ARG- 280	3.42	140.42	H-Bond (Protein Donor)	false
O1A	N	GLY- 326	2.87	152.34	H-Bond (Protein Donor)	false
C1E	CG1	ILE- 327	3.6	0	Hydrophobic	false
C4E	CG1	ILE- 327	3.84	0	Hydrophobic	false
O2G	O	HOH- 575	2.62	159.66	H-Bond (Protein Donor)	false
O2G	O	HOH- 576	2.86	179.94	H-Bond (Protein Donor)	false
O3F	O	HOH- 587	3.32	131.5	H-Bond (Protein Donor)	false